ecaf8745b1b12cc279a7cfb2405ecad7 *DESCRIPTION
d21da20e08892b32101a5fcef6df1539 *NAMESPACE
193ce812c03da2750b2217d37355191f *NEWS
daffa9cc800f981a8efb0885ab9f1403 *R/RcppExports.R
daf4f19cee633302211d626a9a74bbf1 *R/add_multifreq.R
2004405aae46aa6fd934f0857b3e640b *R/compare_motifs.R
899989aaabee9633b0d0e6efe4230b5b *R/convert_motifs.R
0ce9441a0eade49249d7f07588e20505 *R/convert_type.R
bb944c5ca4a5569f807d20e6a1cf9f69 *R/create_motif.R
d81eb105bd044222857238fff6a1bbad *R/create_sequences.R
cc0e8549b5e757198e582b5566aa27fb *R/data.R
9220ab08caaea4c2cc072d6d830d0a5f *R/enrich_motifs.R
114d5d31d6437ce765a9611d3721abff *R/filter_motifs.R
9be9ed993d91370f5e96bde2c50b9aea *R/get_bkg.R
45a0335f5d7e3ad025477022e5f5e57d *R/make_DBscores.R
1aaed7444e41c760fb0efdf8163a9471 *R/merge_motifs.R
502d1c9bbefc308b4b6a274019d12e62 *R/merge_similar.R
1afa5239cf0b2571de55d8e54b43a211 *R/motif_clusters.R
5456f4021718d7fb567ac61f11cc9442 *R/motif_finder.R
593fb52a1cd9405b5b765c4570a06edf *R/motif_peaks.R
d806ec3ed1a09b0c6280824229aa1193 *R/motif_pvalue.R
92f55c7d0090a7152f0a037e3b22fffa *R/motif_rc.R
98d70d4c534a8fd463eb5c6ede77d25e *R/motif_tree.R
795722f2ba9d1106497ec2b5bc3ae188 *R/read_cisbp.R
eda351eba21f37fea8293b9027fdddc0 *R/read_homer.R
731fcb4ef014664950111415005a6bb1 *R/read_jaspar.R
3773d064aab1b4806934a36e9b3d539e *R/read_matrix.R
787743b0db2418c078feaebeb55f7643 *R/read_meme.R
cf9ad61fbbd50ef3d75495bc22173f4c *R/read_motifs.R
85b943e6f002ff31fce4edc1253b70ee *R/read_transfac.R
351fccb5f76c22d3cf5d9302dea25909 *R/read_uniprobe.R
a0c88e47149b96b6b0248746ee110f21 *R/run_meme.R
8a2805d02f2c7662748ee4a62e5107be *R/sample_sites.R
49e3f9c13947f380aa53b86d14737b78 *R/scan_sequences.R
deee9176ebbf77206355a37d7c9a3e09 *R/sequence_complexity.R
c59b6485290c84aaa41fc4c2d01a416c *R/shuffle_motifs.R
555b3463446fc381c0c7235383c8bb63 *R/shuffle_sequences.R
c2a48d26fbec274b3fefc24855e95584 *R/switch_alph.R
99925312d1cc55d4dae52034c4d30eef *R/trim_motifs.R
342e27f46f7685c8a126df4a496f142c *R/universalmotif-class.R
07b2599e0b59bcf5b836cb446a6a9e8e *R/universalmotif-methods.R
965eafa933cfaf33ff3f12026b4e51e1 *R/universalmotif.R
90c9fc622e2f8fdd520a528235b01cdb *R/universalmotif_df.R
c6f0b2d7c443ecb02a01c6d58c21ccf1 *R/utils-internal.R
87a774fb2900924c610908b6827e824b *R/utils-motif.R
17586776964e8701087831a1ba52e857 *R/utils-sequence.R
4c7e3574b40f8e43aabf4a73429dd067 *R/view_logo.R
19a70f1be0e06167a490189d818d5f8e *R/view_motifs.R
ba5d327da9b0eb60f6442d5a47c52d67 *R/write_homer.R
8ee5b9b27d27b84cd92e82e1f09c32ba *R/write_jaspar.R
454c4196bae02e56a4b5221de5f0be73 *R/write_matrix.R
a176180a12fe2555abb3456708b9f087 *R/write_meme.R
2897ee9dc94ba7477ae61921881bd50c *R/write_motifs.R
ac1462e75616cd9d9d9113087cbc93f0 *R/write_transfac.R
f7b9c3b514df8ed1123f2123b16cdbb3 *R/zzz.R
11410b00b3de93af0e410c91e94512bf *README.md
0d1a361ebdb777ff88e0aeff158934e3 *build/vignette.rds
0fedcef806ff67bd21def474f8c0f686 *data/ArabidopsisMotif.rda
d0b4e05425d4ee6535314c72c6f96324 *data/ArabidopsisPromoters.rda
589c8820070ea73cc9b496f3cb2cf798 *data/JASPAR2018_CORE_DBSCORES.rda
5c13cfbc05b51a3f49fa10a9e5cee450 *data/examplemotif.rda
53beda63dcdcce418f110b05e89da6e4 *data/examplemotif2.rda
e53c0bdf1f9aef71c4fed935c474b7a0 *data/fontDFroboto.rda
9acec33be2e55c066738c898f88a9dd8 *inst/CITATION
37a263dd37485d2e735408cfb7275e12 *inst/doc/Introduction.R
df4c93c432831369a6fe72245c64e214 *inst/doc/Introduction.Rmd
557f9189490d2ce77f0d5d4f68761c1e *inst/doc/Introduction.pdf
9dd9b84987cb216ff88b32768a663ddc *inst/doc/IntroductionToSequenceMotifs.R
53797a03f830b32bb7ad09e73f3ee75d *inst/doc/IntroductionToSequenceMotifs.Rmd
8278edb480a7a511e58d0d9c2cac37c5 *inst/doc/IntroductionToSequenceMotifs.pdf
3d69c4a0a511485431ee86f3d1d61e53 *inst/doc/MotifComparisonAndPvalues.R
d332b9a76ed4f69a55c158f51fea89d2 *inst/doc/MotifComparisonAndPvalues.Rmd
f635b299f35df047f922260ac08aa1ab *inst/doc/MotifComparisonAndPvalues.pdf
41ee85efe60ab448d04954b173dc58e4 *inst/doc/MotifManipulation.R
53867586f573a58683cb7e49bf3963ee *inst/doc/MotifManipulation.Rmd
626b54fe472445736be91d1b19c8717d *inst/doc/MotifManipulation.pdf
820b31ed58c2db112a7699477edc7f01 *inst/doc/SequenceSearches.R
8cee49b38c2083e9804d6ae35c015b93 *inst/doc/SequenceSearches.Rmd
81fc53ecf04cfc5d7117ad362f5e3ff0 *inst/doc/SequenceSearches.pdf
a2b30de61d36bf4757f9bf99489d0214 *inst/extdata/cisbp.txt
5a12ccc2085c2392d7551fee171455c5 *inst/extdata/dreme.txt
4cecec99fe4ab206f13975d6093eb915 *inst/extdata/hocomoco.txt
923edc3048e0ff7f261e9214ca0fafcb *inst/extdata/homer.txt
e6b0f8b479b936f984ef01243e8f5df5 *inst/extdata/jaspar.txt
6548da897ef43bec4d49c322bd79a091 *inst/extdata/meme_custom_alph.txt
39207ee07de83b383f8521d916c75774 *inst/extdata/meme_full.txt
d11f29343e052cc45f7ecd0583068aa0 *inst/extdata/meme_minimal.txt
582aba832d47b73437c26bb3d404b33e *inst/extdata/sites.txt
a3928e8c4de05761f0bf112a7af420b8 *inst/extdata/transfac.txt
bbb960134e63f044692949eb649459ca *inst/extdata/uniprobe_full.txt
3e0c0a6e00821a9e857ef83ae18d27e8 *inst/extdata/uniprobe_minimal.txt
4ecf8e379448fe83328c641cdbfee51c *inst/extdata/universalmotif.txt
ceaf8ff43a7ef9da85a3ef1ec23c3d7a *inst/figures/example1.png
47f7b7467fc4c77ee24100df1e5296ad *inst/figures/example2.png
39f5d6504a79404c83446e7d79a7ba06 *man/ArabidopsisMotif.Rd
baf0590d8b4eebadea84cddf25ff101f *man/ArabidopsisPromoters.Rd
d5cdf009fe2d137c2e3e16ab48ee9de9 *man/JASPAR2018_CORE_DBSCORES.Rd
ac8a989cf366a7703751f16fc094a39c *man/add_multifreq.Rd
f7f171d404c00082a6e147ff5dcb0b9f *man/compare_motifs.Rd
4fe6a7b2273d4c38547302388d0f67f5 *man/convert_motifs.Rd
13042d0bfa234a7e4c173e84c905c01d *man/convert_type.Rd
8e09c5475d41178e9d80426eb6369e24 *man/create_motif.Rd
8f072f781f8747b6f4460ec5d5890f07 *man/create_sequences.Rd
9adf6c772127b2420c4615205584e164 *man/enrich_motifs.Rd
50044f3f9eef8b9c47b0560f4846c8e6 *man/examplemotif.Rd
48ef90d6191d6884bd56570f7e209a0f *man/examplemotif2.Rd
3f58fb20d74e6f25cc9703e47b1455e9 *man/filter_motifs.Rd
9d18821dbeb8f6bb4e51b01f22096f75 *man/fontDFroboto.Rd
e89bb174ddcd57497cd9fbbe34e26ebd *man/get_bkg.Rd
b9ef9c02a514d38287e2cebd6b8e8797 *man/make_DBscores.Rd
a7908cd173f352472edf2693596fd7e2 *man/merge_motifs.Rd
e5e7cd89d469dd574a9bc52215e63db5 *man/merge_similar.Rd
fed197deb657c60b5559079a5e11bc92 *man/motif_peaks.Rd
84941f2e9861472eca47ad1a22c3c0cb *man/motif_pvalue.Rd
79777a15400baff69ee19314705f5718 *man/motif_rc.Rd
168a62e223053f0c1ab177ce41a99f16 *man/motif_tree.Rd
a54c467e284b2e0f76e9479179f8f72b *man/read_cisbp.Rd
714811310d47ec85c5f4a517a2b2e74a *man/read_homer.Rd
e4b42659c90d327a34b1fd76d938751c *man/read_jaspar.Rd
2a6ed3073bf70dda5503d742bc4e9d6e *man/read_matrix.Rd
fcef75681f267293797de190ff67a9e7 *man/read_meme.Rd
c07eb5472582bd6757e7fa49bb86fde4 *man/read_motifs.Rd
29802edfcc42a5aa60f96df46503d3ff *man/read_transfac.Rd
896e231cf07d50e7bee3c584c15db41c *man/read_uniprobe.Rd
9313ac2ecf7be78014116915ed3a299c *man/reexports.Rd
c512d84fff71b8e0730b052a7a88892d *man/run_meme.Rd
878bec89a698367af5b69cc7e0eba966 *man/sample_sites.Rd
37b7f1f3d017adf68d2a8adcb6d9bcfc *man/scan_sequences.Rd
75bfdb7242eb608a69b56fa0d640abb6 *man/sequence_complexity.Rd
cafda741849446b2a4e1242723ae29dc *man/shuffle_motifs.Rd
dd586ebe106d9c18a534a37fc31ac248 *man/shuffle_sequences.Rd
233cb675e1bee1817ca9c494dea2779e *man/switch_alph.Rd
4b948592cbd8c764af474a830663613c *man/tidy-motifs.Rd
815dbc13a49a2a5f295d5cec6687c6d5 *man/trim_motifs.Rd
de30d2a6f86b646cbe2403a65e24550c *man/universalmotif-class.Rd
91b26d407537d7a53902895162944286 *man/universalmotif-pkg.Rd
ab83eead449ae17e2c7f418ab2b83271 *man/utilities.Rd
c3eb4af42a6aa55b53f8adaf5f553c0e *man/utils-motif.Rd
c387a308cd0eed1ab29211f1a5f22d7f *man/utils-sequence.Rd
e8849c59ea323f2bd38904cfcc42e211 *man/view_logo.Rd
6f221469eab8aec1c72df909763c15b1 *man/view_motifs.Rd
b9052741817cf9b519d74b0131734b25 *man/write_homer.Rd
bbfb7c1435149f5b1fd6d97364a6bc58 *man/write_jaspar.Rd
737c883f8428873383c4971fc3c2fc99 *man/write_matrix.Rd
7c099e59acdc0abdab6a18db896f3fbc *man/write_meme.Rd
fe802459268ce8eeb60f38378bb37c59 *man/write_motifs.Rd
9a1d4933f624b72757d2b903e0f15e13 *man/write_transfac.Rd
faa1e3c16c23ba6e7363adddf1600f3a *src/Makevars
130494f73109e14b1f1d1c73c0530d9d *src/Makevars.win
ec8ebeca7d8ac4ca317c70d703bae338 *src/RcppExports.cpp
319578c165e447cbc05fbc04810a4b9e *src/add_multifreq.cpp
8e7d389356abfbcb6e94fe2bad3cc5c8 *src/calc_complexity.cpp
ef791f03c7cad59420cbca6e39663975 *src/compare_motifs.cpp
c11b3a15be34137facd93a1ebe0e014b *src/get_bkg.cpp
fb462167e70f3c9a6a3a6cf1dde2243c *src/motif_finder.cpp
61a9d7b5717eeff44a74287c62bb1c1d *src/motif_peaks.cpp
f8ee9ab87573b8a41134649348dd7434 *src/motif_pvalue.cpp
5f4ee315103bfc70159871a0f4cecb19 *src/scan_sequences.cpp
587558a41cd124ccf6ca93dbf1f3e54f *src/shuffle_sequences.cpp
c6de1c4da895c968dce2b9817a8b8894 *src/shuffle_sequences.h
738e14bf6eaf4559256af7f0819b1dfa *src/trim_motifs.cpp
6d6b5bb5965f928e279c335f79f6fd82 *src/types.h
06aa0e2fc5cc3c1c77f73e3fd7130a7d *src/universalmotif-class.cpp
668cf41c0973751ac0c4100c81193b8d *src/utils-exported.cpp
8b60104e5ed091632c574104c37424cf *src/utils-exported.h
7b9cb53c90ca67a12a318df7e7577f8c *src/utils-internal.cpp
6eeb9b95d9d3ebf4b35b819b08b9cfe0 *src/utils-internal.h
0622a97a2aaa3c342f09636052c2d7f5 *tests/spelling.R
4e3a5a94e661dd25f836adb5f425c1ff *tests/testthat.R
540f2c8f6aac125bc602368068f29f37 *tests/testthat/test_add_multifreq.R
97c82c0a99d04753364d9759f30a37a0 *tests/testthat/test_compare_motifs.R
234762ed23f88ae3481285388a7e484f *tests/testthat/test_convert_motifs.R
4df76942fea41fcd21af183f1b0fd722 *tests/testthat/test_convert_type.R
4116b7254663fba3ea5f8b37e7b1ae6f *tests/testthat/test_create_motif.R
3aaa2ce498869ce558c9daf601bef9d5 *tests/testthat/test_create_sequences.R
0d8c54a2536d2d0aa04e1d770cdf9e76 *tests/testthat/test_enrich_motifs.R
7b5d717012da9d5f1a8db169197ff682 *tests/testthat/test_filter_motifs.R
4ddafddbcb635d0272e74ef9593ed698 *tests/testthat/test_get_bkg.R
8ced9937427a926bc97e409fb5ac5c3a *tests/testthat/test_merge_motifs.R
7f33deee59f53c4be99d40a8d31d35ee *tests/testthat/test_motif_peaks.R
9a128ad476126f1b2dc6786d189c72f8 *tests/testthat/test_motif_pvalue.R
c123bb25ef7c24b53fd6e169b626f43e *tests/testthat/test_motif_rc.R
80da1498b4488ac10146b2accfd5fbf1 *tests/testthat/test_motif_score.R
15b683c9a7be9619105cce139275d747 *tests/testthat/test_motif_tree.R
dd9c0cc0267f927be39fbcb9436df1c7 *tests/testthat/test_read_motifs.R
b1840e6c3272e6f2b26d635502b8aab2 *tests/testthat/test_run_meme.R
eb60e04da498e488248181b3286cdc4b *tests/testthat/test_sample_sites.R
111cc898c163702c15ddc945c139ae52 *tests/testthat/test_scan_sequences.R
f558f28efc042c09161f81aa090b6461 *tests/testthat/test_shuffle_motifs.R
a93813ef8038e40b7825f437e12836cf *tests/testthat/test_shuffle_sequences.R
c051da3d60dd4e2e4068f2288fa8c1a2 *tests/testthat/test_switch_alph.R
c7add58ba53f13bccc9615c87479ff4b *tests/testthat/test_trim_motifs.R
61e93ea17ee93c268392c4018d37cda2 *tests/testthat/test_universalmotif-methods.R
253405b99e0362939500661648c8ca20 *tests/testthat/test_universalmotif_df.R
06136462530956a04e72415857c6b30a *tests/testthat/test_utils-motif.R
dec56e7c10d2d611b31cd9816e049fd4 *tests/testthat/test_utils.R
42d06cce38dd2b6914bde951d9ca13cf *tests/testthat/test_view_motifs.R
90f8601a018c856c8bed987366bea4e0 *tests/testthat/test_write_motifs.R
df4c93c432831369a6fe72245c64e214 *vignettes/Introduction.Rmd
53797a03f830b32bb7ad09e73f3ee75d *vignettes/IntroductionToSequenceMotifs.Rmd
d332b9a76ed4f69a55c158f51fea89d2 *vignettes/MotifComparisonAndPvalues.Rmd
53867586f573a58683cb7e49bf3963ee *vignettes/MotifManipulation.Rmd
8cee49b38c2083e9804d6ae35c015b93 *vignettes/SequenceSearches.Rmd
56b580d13d938e39bf99d3706216e2f1 *vignettes/universalmotif.bib
